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apo form of the glycosyltransferase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other partial model from a low resolution SAD data
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 20% PEG 4000 HEPES-NaOH buffer pH 6.5
Crystal Properties Matthews coefficient Solvent content 2.12 41.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.268 α = 90 b = 79.837 β = 90 c = 105.413 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2019-05-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL18U1 0.978 SSRF BL18U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.77 50 99.9 0.042 35 6.5 42109
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.77 1.8 0.284
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT partial model from a low resolution SAD data 1.77 39.95 42105 2006 99.898 0.167 0.1658 0.1775 0.1977 0.2087 30.859
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 0.795 0.054 -0.849
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.002 r_dihedral_angle_4_deg 16.114 r_dihedral_angle_3_deg 12.936 r_lrange_it 6.517 r_lrange_other 6.485 r_dihedral_angle_1_deg 6.112 r_scangle_it 4.991 r_scangle_other 4.991 r_scbond_it 3.452 r_scbond_other 3.451
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.002 r_dihedral_angle_4_deg 16.114 r_dihedral_angle_3_deg 12.936 r_lrange_it 6.517 r_lrange_other 6.485 r_dihedral_angle_1_deg 6.112 r_scangle_it 4.991 r_scangle_other 4.991 r_scbond_it 3.452 r_scbond_other 3.451 r_mcangle_it 3.071 r_mcangle_other 3.071 r_mcbond_it 2.178 r_mcbond_other 2.177 r_angle_refined_deg 1.549 r_angle_other_deg 1.406 r_nbd_refined 0.205 r_symmetry_nbd_refined 0.194 r_nbd_other 0.194 r_symmetry_xyhbond_nbd_refined 0.181 r_symmetry_nbd_other 0.171 r_nbtor_refined 0.162 r_xyhbond_nbd_refined 0.124 r_chiral_restr 0.079 r_symmetry_nbtor_other 0.079 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3114 Nucleic Acid Atoms Solvent Atoms 191 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction DIALS data scaling PHASER phasing